biosciences working group update wilfred w. li, ph.d., ucsd, usa habibah wahab, ph.d., usm, malaysia...
TRANSCRIPT
![Page 1: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/1.jpg)
Biosciences Working Group Update
Wilfred W. Li, Ph.D., UCSD, USA
Habibah Wahab, Ph.D., USM, Malaysia
Hosted by IOITHanoi, Vietnam, Oct 29, 2009
![Page 2: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/2.jpg)
Recap of PRAGMA 16 – Daejon, Korea, Mar 2009
• Infectious Diseases Research in Cyberinfrastructure (iDRiC Workshop)--KISTI
• Drugscreener-G – KISTI, Korea• Grid Enabled Virtural Screening Service –
ASGC, Taiwan• CADD Pipeline – NBCR, USA• WISDOM project – CNRS, EU• Glyco-M*Grid – Kookmin & Konkuk U, Korea
![Page 3: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/3.jpg)
Follow-up activities
• Continued development of application specific services – AutoDock, NAMD as Opal services
• Continued development of workflows – NBCR Summer Institute training of CADD pipeline
• Glyco-M*Grid – Suntae Hwang• Release of Opal 2.1 with condor and CSF4
4.0.5.1 plugins• Ability to use Condor web service interface for
virtual screening using TeraGrid
![Page 4: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/4.jpg)
New Since PRAGMA 16
• Real-time bioMEdical data Streaming and visualization (RIMES) – CNIC, China
• PRIME Students– USM, NTU, CNIC– Osaka U., Monash U.– New in 2010: JLU, host of PRAGMA 19
• MURPA Students– Cheminformatics and Nimrod/K based workflows
• Calit2 Summer Internship– Kevin Wu
![Page 5: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/5.jpg)
Real-time bioMEdical data Streaming and visualization (RIMES)
Kevin Dong, CNIC
![Page 6: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/6.jpg)
Next Milestone
• Production use of Gfarm for sharing simulation data– Production use by PRAGMA 18
• Virtual machine scheduling using CSF4– Demonstration by PRAGMA 19
![Page 7: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/7.jpg)
Scientific Results
Newhouse et al, JACS 2009
![Page 8: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/8.jpg)
PRIME/Calit2 Summer Project
![Page 9: Biosciences Working Group Update Wilfred W. Li, Ph.D., UCSD, USA Habibah Wahab, Ph.D., USM, Malaysia Hosted by IOIT Hanoi, Vietnam, Oct 29, 2009](https://reader036.vdocuments.site/reader036/viewer/2022081602/55149be5550346b2598b588e/html5/thumbnails/9.jpg)
New Challenges
• Virtualization – What does it mean to us?• Production environment – Where is it? What
form should it take?• The Connection between Productivity and
Grid/Cloud – Most work is still done on local clusters, the desire to use the grid/Cloud is there, but the infrastructure is still evolving
• Sociology of software engineering – Can we collaborate using Facebook?